miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
18276 3' -51.3 NC_004681.1 + 33717 0.66 0.953532
Target:  5'- -cUCCAggUCGGCGAcCUUGGcguugaugucgucgcGCUUGu -3'
miRNA:   3'- acAGGUagAGCCGCUuGAACC---------------UGAAC- -5'
18276 3' -51.3 NC_004681.1 + 6851 0.66 0.951347
Target:  5'- aGUCCuUCUCGGCcGAcuggucgauggugGCUaGGGcCUUGg -3'
miRNA:   3'- aCAGGuAGAGCCG-CU-------------UGAaCCU-GAAC- -5'
18276 3' -51.3 NC_004681.1 + 19109 0.66 0.947244
Target:  5'- gUGUcgCCGUCUUGGCGAGCacccuuGCUUGu -3'
miRNA:   3'- -ACA--GGUAGAGCCGCUUGaacc--UGAAC- -5'
18276 3' -51.3 NC_004681.1 + 27301 0.66 0.947244
Target:  5'- cGUCCAUCgCGGUGAACaucaccgUGGcGCa-- -3'
miRNA:   3'- aCAGGUAGaGCCGCUUGa------ACC-UGaac -5'
18276 3' -51.3 NC_004681.1 + 7818 0.66 0.947244
Target:  5'- -cUCCAcCUCgauGGUGGACUUGGAUUc- -3'
miRNA:   3'- acAGGUaGAG---CCGCUUGAACCUGAac -5'
18276 3' -51.3 NC_004681.1 + 46278 0.66 0.944385
Target:  5'- cUGUCCgAUUUCGGUGGucauguugACUccaacucgaagugaaUGGGCUUGc -3'
miRNA:   3'- -ACAGG-UAGAGCCGCU--------UGA---------------ACCUGAAC- -5'
18276 3' -51.3 NC_004681.1 + 59244 0.67 0.926293
Target:  5'- cGUCCcgcuUCUCGGCGuAgaUGGugUa- -3'
miRNA:   3'- aCAGGu---AGAGCCGCuUgaACCugAac -5'
18276 3' -51.3 NC_004681.1 + 38901 0.67 0.907636
Target:  5'- --aUgGUCUCGGCGGACUUGcGCg-- -3'
miRNA:   3'- acaGgUAGAGCCGCUUGAACcUGaac -5'
18276 3' -51.3 NC_004681.1 + 62944 0.68 0.893814
Target:  5'- gGUCCuUCUCGGCGcGCUcGGugcgcccCUUGu -3'
miRNA:   3'- aCAGGuAGAGCCGCuUGAaCCu------GAAC- -5'
18276 3' -51.3 NC_004681.1 + 56696 0.68 0.893094
Target:  5'- --aUCGUCUaCGGCGAGCUcaucggcUGGACa-- -3'
miRNA:   3'- acaGGUAGA-GCCGCUUGA-------ACCUGaac -5'
18276 3' -51.3 NC_004681.1 + 23726 0.68 0.886496
Target:  5'- cG-CCGUCgUCGGCGAACg-GGACc-- -3'
miRNA:   3'- aCaGGUAG-AGCCGCUUGaaCCUGaac -5'
18276 3' -51.3 NC_004681.1 + 59851 0.68 0.886496
Target:  5'- -aUCCAcCUCGGCG-ACUgccgGGACa-- -3'
miRNA:   3'- acAGGUaGAGCCGCuUGAa---CCUGaac -5'
18276 3' -51.3 NC_004681.1 + 65520 0.68 0.878915
Target:  5'- aGU--GUCUCGGCcugGAAUUUGGACUUc -3'
miRNA:   3'- aCAggUAGAGCCG---CUUGAACCUGAAc -5'
18276 3' -51.3 NC_004681.1 + 27137 0.69 0.854646
Target:  5'- cGUCCugcaagcguUCUCGGCGGGCUacgGGuACUc- -3'
miRNA:   3'- aCAGGu--------AGAGCCGCUUGAa--CC-UGAac -5'
18276 3' -51.3 NC_004681.1 + 1726 0.69 0.854646
Target:  5'- -cUCCAgCUCGGUGAACgcauacgggUGGACg-- -3'
miRNA:   3'- acAGGUaGAGCCGCUUGa--------ACCUGaac -5'
18276 3' -51.3 NC_004681.1 + 42693 0.69 0.809588
Target:  5'- aUGUCCAUgagCUUGGCGAugACggUGGcCUUGu -3'
miRNA:   3'- -ACAGGUA---GAGCCGCU--UGa-ACCuGAAC- -5'
18276 3' -51.3 NC_004681.1 + 49283 0.7 0.79017
Target:  5'- --aCCAUCUUGGUGAGCUccaGGAUUUc -3'
miRNA:   3'- acaGGUAGAGCCGCUUGAa--CCUGAAc -5'
18276 3' -51.3 NC_004681.1 + 17270 1.1 0.003313
Target:  5'- uUGUCCAUCUCGGCGAACUUGGACUUGa -3'
miRNA:   3'- -ACAGGUAGAGCCGCUUGAACCUGAAC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.